ArticleNucleic acids research2011
Efficient internal exon recognition depends on near equal contributions from the 3' and 5' splice sites.
Article in Nucleic acids research, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- Imaging mass cytometry reveals novel cellular neighborhoods for predicting the prognosis of nonalcoholic fatty liver disease-associated hepatocellular carcinoma.Cancer cell international · 2026Article
- Inverted Alu repeats in loop-out exon skipping across hominoid evolution.Nucleic acids research · 2026Article
- Article
- The unusual gene architecture of polyubiquitin is created by dual-specific splice sites.Genome biology · 2024Article
- Combining genetic constraint with predictions of alternative splicing to prioritize deleterious splicing in rare disease studies.BMC bioinformatics · 2022Article
- High-throughput analysis of ANRIL circRNA isoforms in human pancreatic islets.Scientific reports · 2022Article
- Splice site proximity influences alternative exon definition.RNA biology · 2022Article
- Nonproductive Splicing Prevents Expression of MYH7b Protein in the Mammalian Heart.Journal of the American Heart Association · 2021Article
- Prpf31 is essential for the survival and differentiation of retinal progenitor cells by modulating alternative splicing.Nucleic acids research · 2021Article
- Allosteric regulation of U1 snRNP by splicing regulatory proteins controls spliceosomal assembly.RNA (New York, N.Y.) · 2020Article
- Exon size and sequence conservation improves identification of splice-altering nucleotides.RNA (New York, N.Y.) · 2019Article
- Article
- Impact of acceptor splice site NAGTAG motif on exon recognition.Molecular biology reports · 2019Article
- A sequence-based, deep learning model accurately predicts RNA splicing branchpoints.RNA (New York, N.Y.) · 2018Article
- Regulation of constitutive and alternative mRNA splicing across the human transcriptome by PRPF8 is determined by 5' splice site strength.Genome biology · 2015Article
- Splicing predictions reliably classify different types of alternative splicing.RNA (New York, N.Y.) · 2015Article
- Splicing of designer exons informs a biophysical model for exon definition.RNA (New York, N.Y.) · 2015Article
- Evolution of splicing regulatory networks in Drosophila.Genome research · 2014Article
- Neuronal-specific deficiency of the splicing factor Tra2b causes apoptosis in neurogenic areas of the developing mouse brain.PloS one · 2014Article
- Confirmation of GRHL2 as the gene for the DFNA28 locus.American journal of medical genetics. Part A · 2013Article
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Authors and funding
4 authors.
Funding
Abstract
Pre-mRNA splicing is carried out by the spliceosome, which identifies exons and removes intervening introns. In vertebrates, most splice sites are initially recognized by the spliceosome across the exon, because most exons are small and surrounded by large introns. This gene architecture predicts that efficient exon recognition depends largely on the strength of the flanking 3' and 5' splice sites. However, it is unknown if the 3' or the 5' splice site dominates the exon recognition process. Here, we test the 3' and 5' splice site contributions towards efficient exon recognition by systematically replacing the splice sites of an internal exon with sequences of different splice site strengths. We show that the presence of an optimal splice site does not guarantee exon inclusion and that the best predictor for exon recognition is the sum of both splice site scores. Using a genome-wide approach, we demonstrate that the combined 3' and 5' splice site strengths of internal exons provide a much more significant separator between constitutive and alternative exons than either the 3' or the 5' splice site strength alone.
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